Mario vs. Bowser with 63.89% of the vote
Mega Man X vs. Zero with 58.41% if the vote
Pokemon Trainer Red vs. Pokemon Trainer Blue with 54.54% of the vote
Samus Aran vs. Ridley with 56.77% of the vote
Link vs. Ganondorf with 70.01% of the vote
Alucard vs. Dracula with 50.09% of the vote
Cloud Strife vs. Sephiroth with 56.65% of the vote
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Well, this was unexpected. http://www.youtube.com/watch?v=4dGJKh9hLTs
Plus a bonus celebratory link: http://www.youtube.com/watch?v=SEY11Wxu_JQ